SRX10977322
GSM5331161: TF ChIP-seq from SK-N-SH (ENCLB832GIO); Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ZNF608

Cell type

Cell type Class
Neural
Cell type
SK-N-SH
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

sample_type
cell line
sex
female
dev stage
child
age
4 year
donor ID
ENCDO000ABD
lab
Michael Snyder, Stanford
source
ATCC
health state
Metastatic neuroblastoma from bone marrow
cell line
SK-N-SH
treatments
treatment_term_id: CHEBI:15367; treatment_term_name: all-trans-retinoic acid; treatment_type: chemical; duration: 48; duration_units: hour;

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
general protocol: https://www.encodeproject.org/documents/716003cd-3ce7-41ce-b1e3-6f203b6632a0/@@download/attachment/ENCODE4%20_Snyder_ChIP-seq_BiorupterTruSeqProtocol_v1.pdf

Sequencing Platform

instrument_model
Illumina HiSeq 4000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
41255254
Reads aligned (%)
94.7
Duplicates removed (%)
30.6
Number of peaks
1064 (qval < 1E-05)

hg19

Number of total reads
41255254
Reads aligned (%)
93.8
Duplicates removed (%)
31.0
Number of peaks
543 (qval < 1E-05)

Base call quality data from DBCLS SRA